PoisDev | R Documentation |
A function called within QL.fit
to compute Poisson deviances of each gene for given design matrix
PoisDev(counts,design,log.offset,print.progress=TRUE)
counts |
RNA-seq data matrix of integer expression counts. Each row contains observations from a single gene. Each column contains observations from a single experimental unit. |
design |
A single element from the |
log.offset |
A vector of log-scale, additive factors used to adjust estimated log-scale means for differences in library sizes across samples. Commonly used offsets include, |
print.progress |
logical. If |
list containing:
dev |
vector containing the deviance for each gene under a Poisson model fit to design matrix (or vector, for one-factor experiments) specified by |
means |
matrix of fitted mean values for each gene |
parms |
matrix of estimated coefficients for each gene |
bartlett.epsilon |
A numeric vector containing the epsilon values that can be later used for Bartllet correction of likelihood ratio test. |
Originally authored by Steve Lund lundsp@gmail.com; later modified by Long Qu rtistician@gmail.com
## Not run: pois.fit = with(mockRNASeqData, PoisDev(counts, design.matrix, log(estimated.normalization)) ) ## End(Not run)
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.